plotIndiv function - explained variance of PC in plot

[Emeline F (Aestra)]

Hello,

I noticed one problem about graphical output of plotIndiv function. If i use the default style (ggplot2), the xlab and ylab are just "x" and "y".

If i use other graphics styles (such as lattice), the xlab and ylab are the explained variance of PC.

Thank you !

[Florian Rohart]

Hi Emeline,

This bug (due to an update of ggplot it seems) was corrected and a fix is available in the new development version (6.7.0):

library(devtools)
install_github("mixOmicsTeam/mixOmics")

For future questions, please go to github (https://github.com/mixOmicsTeam/mixOmics/issues) :)

Thanks!

[michael eisenring]

Dear Florian, Thank you for this. The problem that Emeline mentioned is solved. However, since I updated to the new version I am not able to change the size of the Y- and X-axes labels, using the "size.xlable" command. Is this possible?

Thank you, Mike

[Florian Rohart]

Hi Michael,

I can't replicate your problem, it's working on my end with the latest version

data(multidrug)
pca.res <- pca(multidrug$ABC.trans, ncomp = 4)

plotIndiv(pca.res, ind.names = multidrug$cell.line$Class,
group = as.numeric(as.factor(multidrug$cell.line$Class)),
size.xlabel=rel(3), size.ylabel = rel(6))

[michael eisenring]

This is strange, and I am pretty sure it is a stupid mistake from my side. I use the fix that you recommended earlier on in this post and I also use the newest version of R (3.5.2).

In my example I use a very large value for "size.ylable" and a small value for "size.xlable" but as you can see the axes lables have still the same size.

par(cex.lab=15,cex.axis=1.2)
plotIndiv(dta.plsda3, ind.names = F, ellipse = T, legend =TRUE,centroid=F,star=F,
          title="Canopy-overall",style="ggplot2", col=c("#a1d99b","#41ab5d","#005a32"),
          cex = 5,size.xlable=1,size.ylable=26,pch=16,rep.space = 'X-variate',size.legend=12)

[Florian Rohart]

Hi Michael,

I think your misspelling the parameters! “size.xlabel” and not “size.xlable” :)

[michael eisenring]

Stupid me:)!

Thanks a lot. Mike